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<tr bgcolor="#7799ee">
<td valign=bottom>&nbsp;<br>
<font color="#ffffff" face="helvetica, arial">&nbsp;<br><big><big><strong>index</strong></big></big></font></td
><td align=right valign=bottom
><font color="#ffffff" face="helvetica, arial"><a href=".">index</a><br><a href="file:/home/lc6/pygenome/src/index.py">/home/lc6/pygenome/src/index.py</a></font></td></tr></table>
    <p><tt>Created&nbsp;on&nbsp;May&nbsp;27,&nbsp;2010<br>
&nbsp;<br>
@author:&nbsp;hide1713</tt></p>
<p>
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<tr bgcolor="#aa55cc">
<td colspan=3 valign=bottom>&nbsp;<br>
<font color="#fffff" face="helvetica, arial"><big><strong>Modules</strong></big></font></td></tr>
    
<tr><td bgcolor="#aa55cc"><tt>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</tt></td><td>&nbsp;</td>
<td width="100%"><table width="100%" summary="list"><tr><td width="25%" valign=top><a href="Image.html">Image</a><br>
<a href="ImageDraw.html">ImageDraw</a><br>
<a href="StringIO.html">StringIO</a><br>
</td><td width="25%" valign=top><a href="logging.html">logging</a><br>
<a href="matplotlib.html">matplotlib</a><br>
<a href="os.html">os</a><br>
</td><td width="25%" valign=top><a href="re.html">re</a><br>
<a href="sys.html">sys</a><br>
<a href="urllib.html">urllib</a><br>
</td><td width="25%" valign=top><a href="web.html">web</a><br>
</td></tr></table></td></tr></table><p>
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<tr bgcolor="#ee77aa">
<td colspan=3 valign=bottom>&nbsp;<br>
<font color="#ffffff" face="helvetica, arial"><big><strong>Classes</strong></big></font></td></tr>
    
<tr><td bgcolor="#ee77aa"><tt>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</tt></td><td>&nbsp;</td>
<td width="100%"><dl>
<dt><font face="helvetica, arial"><a href="__builtin__.html#object">__builtin__.object</a>
</font></dt><dd>
<dl>
<dt><font face="helvetica, arial"><a href="index.html#FamilyRecruit">FamilyRecruit</a>
</font></dt></dl>
</dd>
<dt><font face="helvetica, arial"><a href="index.html#Images">Images</a>
</font></dt><dt><font face="helvetica, arial"><a href="index.html#Index">Index</a>
</font></dt><dt><font face="helvetica, arial"><a href="index.html#NewUser">NewUser</a>
</font></dt><dt><font face="helvetica, arial"><a href="index.html#PathRecruit">PathRecruit</a>
</font></dt><dt><font face="helvetica, arial"><a href="index.html#Upload">Upload</a>
</font></dt></dl>
 <p>
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<tr bgcolor="#ffc8d8">
<td colspan=3 valign=bottom>&nbsp;<br>
<font color="#000000" face="helvetica, arial"><a name="FamilyRecruit">class <strong>FamilyRecruit</strong></a>(<a href="__builtin__.html#object">__builtin__.object</a>)</font></td></tr>
    
<tr bgcolor="#ffc8d8"><td rowspan=2><tt>&nbsp;&nbsp;&nbsp;</tt></td>
<td colspan=2><tt>Family&nbsp;Recruit&nbsp;viewing&nbsp;class<br>
Process&nbsp;user&nbsp;input&nbsp;and&nbsp;render&nbsp;page&nbsp;accordingly<br>&nbsp;</tt></td></tr>
<tr><td>&nbsp;</td>
<td width="100%">Methods defined here:<br>
<dl><dt><a name="FamilyRecruit-GET"><strong>GET</strong></a>(self, name<font color="#909090">=None</font>)</dt><dd><tt>Return&nbsp;a&nbsp;string&nbsp;of&nbsp;web&nbsp;page<br>
name:&nbsp;user&nbsp;name&nbsp;from&nbsp;url.&nbsp;Check&nbsp;webpy&nbsp;url&nbsp;handling&nbsp;document&nbsp;for&nbsp;detail</tt></dd></dl>

<hr>
Data and other attributes defined here:<br>
<dl><dt><strong>__dict__</strong> = &lt;dictproxy object&gt;<dd><tt>dictionary&nbsp;for&nbsp;instance&nbsp;variables&nbsp;(if&nbsp;defined)</tt></dl>

<dl><dt><strong>__weakref__</strong> = &lt;attribute '__weakref__' of 'FamilyRecruit' objects&gt;<dd><tt>list&nbsp;of&nbsp;weak&nbsp;references&nbsp;to&nbsp;the&nbsp;<a href="__builtin__.html#object">object</a>&nbsp;(if&nbsp;defined)</tt></dl>

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<tr bgcolor="#ffc8d8">
<td colspan=3 valign=bottom>&nbsp;<br>
<font color="#000000" face="helvetica, arial"><a name="Images">class <strong>Images</strong></a></font></td></tr>
    
<tr bgcolor="#ffc8d8"><td rowspan=2><tt>&nbsp;&nbsp;&nbsp;</tt></td>
<td colspan=2><tt>Transfer&nbsp;<a href="#Images">Images</a>&nbsp;from&nbsp;templates&nbsp;folder<br>&nbsp;</tt></td></tr>
<tr><td>&nbsp;</td>
<td width="100%">Methods defined here:<br>
<dl><dt><a name="Images-GET"><strong>GET</strong></a>(self, name)</dt></dl>

</td></tr></table> <p>
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<tr bgcolor="#ffc8d8">
<td colspan=3 valign=bottom>&nbsp;<br>
<font color="#000000" face="helvetica, arial"><a name="Index">class <strong>Index</strong></a></font></td></tr>
    
<tr bgcolor="#ffc8d8"><td rowspan=2><tt>&nbsp;&nbsp;&nbsp;</tt></td>
<td colspan=2><tt><a href="#Index">Index</a>&nbsp;Page<br>&nbsp;</tt></td></tr>
<tr><td>&nbsp;</td>
<td width="100%">Methods defined here:<br>
<dl><dt><a name="Index-GET"><strong>GET</strong></a>(self)</dt></dl>

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<tr bgcolor="#ffc8d8">
<td colspan=3 valign=bottom>&nbsp;<br>
<font color="#000000" face="helvetica, arial"><a name="NewUser">class <strong>NewUser</strong></a></font></td></tr>
    
<tr bgcolor="#ffc8d8"><td rowspan=2><tt>&nbsp;&nbsp;&nbsp;</tt></td>
<td colspan=2><tt>Validate&nbsp;and&nbsp;Create&nbsp;New&nbsp;Users<br>&nbsp;</tt></td></tr>
<tr><td>&nbsp;</td>
<td width="100%">Methods defined here:<br>
<dl><dt><a name="NewUser-GET"><strong>GET</strong></a>(self)</dt></dl>

<dl><dt><a name="NewUser-POST"><strong>POST</strong></a>(self)</dt></dl>

<dl><dt><a name="NewUser-validateEmail"><strong>validateEmail</strong></a>(self, email)</dt></dl>

</td></tr></table> <p>
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<tr bgcolor="#ffc8d8">
<td colspan=3 valign=bottom>&nbsp;<br>
<font color="#000000" face="helvetica, arial"><a name="PathRecruit">class <strong>PathRecruit</strong></a></font></td></tr>
    
<tr><td bgcolor="#ffc8d8"><tt>&nbsp;&nbsp;&nbsp;</tt></td><td>&nbsp;</td>
<td width="100%">Methods defined here:<br>
<dl><dt><a name="PathRecruit-GET"><strong>GET</strong></a>(self, name<font color="#909090">=None</font>)</dt><dd><tt>Process&nbsp;user&nbsp;input&nbsp;and&nbsp;Call&nbsp;pathrecruit.<a href="#PathRecruit">PathRecruit</a>&nbsp;class&nbsp;to&nbsp;draw&nbsp;image<br>
name:&nbsp;user&nbsp;name&nbsp;from&nbsp;url.&nbsp;Check&nbsp;webpy&nbsp;url&nbsp;handling&nbsp;document&nbsp;for&nbsp;detail</tt></dd></dl>

<dl><dt><a name="PathRecruit-POST"><strong>POST</strong></a>(self, name<font color="#909090">=None</font>)</dt><dd><tt>Process&nbsp;user&nbsp;uploaded&nbsp;file</tt></dd></dl>

<dl><dt><a name="PathRecruit-unzip"><strong>unzip</strong></a>(self, file, user_dir)</dt><dd><tt>Unzip&nbsp;the&nbsp;file&nbsp;and&nbsp;return&nbsp;the&nbsp;tax&nbsp;file&nbsp;names</tt></dd></dl>

</td></tr></table> <p>
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<tr bgcolor="#ffc8d8">
<td colspan=3 valign=bottom>&nbsp;<br>
<font color="#000000" face="helvetica, arial"><a name="Upload">class <strong>Upload</strong></a></font></td></tr>
    
<tr bgcolor="#ffc8d8"><td rowspan=2><tt>&nbsp;&nbsp;&nbsp;</tt></td>
<td colspan=2><tt>File&nbsp;Uploading&nbsp;Page&nbsp;For&nbsp;Family&nbsp;Recruit<br>&nbsp;</tt></td></tr>
<tr><td>&nbsp;</td>
<td width="100%">Methods defined here:<br>
<dl><dt><a name="Upload-GET"><strong>GET</strong></a> = proxyfunc(iself, *args, **kw)</dt></dl>

<dl><dt><a name="Upload-POST"><strong>POST</strong></a> = proxyfunc(iself, *args, **kw)</dt></dl>

</td></tr></table></td></tr></table><p>
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<td colspan=3 valign=bottom>&nbsp;<br>
<font color="#ffffff" face="helvetica, arial"><big><strong>Data</strong></big></font></td></tr>
    
<tr><td bgcolor="#55aa55"><tt>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</tt></td><td>&nbsp;</td>
<td width="100%"><strong>app</strong> = &lt;web.application.application instance&gt;<br>
<strong>auth</strong> = &lt;web.contrib.auth.dbauth.DBAuth object&gt;<br>
<strong>builder</strong> = &lt;parse_pathway.EdgeBuilder object&gt;<br>
<strong>config</strong> = &lt;genome_config.GenomeConfig object&gt;<br>
<strong>ctl</strong> = &lt;controller.MainWindowController object&gt;<br>
<strong>db</strong> = &lt;web.db.SqliteDB instance&gt;<br>
<strong>g_edge_set</strong> = set([K00691,2.4.1.8,R01555:0, K00691,2.4.1.8,R01555:0, TPSD5_ABIGR,4.2.3.-,R08540:0, Q675L0_PICAB,4.2.3.-,R08542:0, Q675L0_PICAB,4.2.3.-,R08542:0, Q675L0_PICAB,4.2.3.-,R08542:0, ...])<br>
<strong>model</strong> = &lt;data_model.model.Model object&gt;<br>
<strong>path</strong> = &lt;open file '../show_pathway.htm', mode 'r'&gt;<br>
<strong>polys</strong> = [&lt;area shape="poly" coords="294,928,266,928,266,...13), 6.2.1.1, 6.2.1.13, R00235, R00229"&gt;
&lt;/area&gt;]<br>
<strong>render</strong> = &lt;web.template.Render instance&gt;<br>
<strong>render_glob</strong> = {'auth': &lt;web.contrib.auth.dbauth.DBAuth object&gt;}<br>
<strong>settings</strong> = {}<br>
<strong>soup</strong> = &lt;html&gt;&lt;head&gt;
&lt;meta http-equiv="content-type" con...id="poplay" class="poplay"&gt;
&lt;/div&gt;&lt;/body&gt;&lt;/html&gt;
<br>
<strong>title_map</strong> = {u'.1.1.1.100': set([K00665,K00667,K11533,K00059,2.3.1.85,2.3.1.86,2.3.1.-,.1.1.1.100,R04566:0]), u'1': set([K00248,K09478,K11410,K11538,K00249,1.3.99.2,1,3.99.3,1.3.99.12,1.3.99.-,R02661:0]), u'1.-.-.-': set([K04036,1.3.1.75,1.-.-.-,1.3.1.75,R06271,R06896:0, K00595,2.1.1.132,1.-.-.-,R05149:0, K00595,2.1.1.132,1.-.-.-,R05149:0, K00595,2.1.1.132,1.-.-.-,R05149:0, K00595,2.1.1.132,1.-.-.-,R05149:0, K00595,2.1.1.132,1.-.-.-,R05149:0]), u'1.1.-.-': set([K00120,1.1.-.-,R06885:0, K00001,K00121,K11146,K11147,K11148,K11149,K11150...53,K11154,1.1.1.1,1.1.1.-,1.1.-.-,R02124,R08379:0]), u'1.1.1.-': set([K00100,1.1.1.-,R05351:0, K00100,1.1.1.-,R05351:0, K00100,1.1.1.-,R05351:0, K07538,1.1.1.-,R05581:0, K00001,K00121,K11146,K11147,K11148,K11149,K11150...53,K11154,1.1.1.1,1.1.1.-,1.1.-.-,R02124,R08379:0, K00071,1.1.1.146,1.1.1.-,R02834,R02836:0]), u'1.1.1.1': set([K00001,K00121,K04072,1.1.1.1,R04880:0, K00001,K00121,K04072,1.1.1.1,R04880:0, K00001,K00121,K04072,1.1.1.1,R04880:0, K00001,K00121,K04072,1.1.1.1,R05233:0, K00001,K00121,K04072,1.1.1.1,R05234:0, K00001,K00121,K11146,K11147,K11148,K11149,K11150...53,K11154,1.1.1.1,1.1.1.-,1.1.-.-,R02124,R08379:0, ...]), u'1.1.1.10': set([K03331,1.1.1.10,R01904:0]), u'1.1.1.100': set([K00665,K00667,K11533,K00059,2.3.1.85,2.3.1.86,2.3.1.-,1.1.1.100,R04543:0, K00665,K00667,K11533,K00059,2.3.1.85,2.3.1.86,2.3.1.-,1.1.1.100,R04964:0, K00665,K00667,K11533,K00059,2.3.1.85,2.3.1.86,2.3.1.-,1.1.1.100,R04534:0, K00665,K00667,K11533,K00059,2.3.1.85,2.3.1.86,2.3.1.-,1.1.1.100,R04536:0, K00665,K00667,K11533,K00059,2.3.1.85,2.3.1.86,2.3.1.-,1.1.1.100,R04953:0, K00665,K00667,K11533,K00059,2.3.1.85,2.3.1.86,2.3.1.-,1.1.1.100,R04533:0]), u'1.1.1.101': set([K06123,1.1.1.101,R02756:0, K06123,1.1.1.101,R04360:0]), u'1.1.1.102': set([K04708,1.1.1.102,R02978:0]), ...}<br>
<strong>urls</strong> = ('/new_user/', 'NewUser', '/images/(.*)', 'Images', '/pathrecruit/(.*)', 'PathRecruit', '/familyrecruit/(.*)', 'FamilyRecruit', '/upload/', 'Upload', '/', 'Index')</td></tr></table>
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